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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411
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        About MultiQC

        This report was generated using MultiQC, version 1.27.1

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/MultiQC/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2025-04-10, 01:21 EDT based on data in: /ocean/projects/agr250001p/brockhau/Finalproject_test/microbiome_project/fastqc_raw_data_out

        Because this report contains a lot of samples, you may need to click 'Show plot' to see some graphs.

        General Statistics

        Showing 198/198 rows and 4/6 columns.
        Sample NameDupsGCAvg lenMedian lenFailedSeqs
        fastqc_raw_data_out | SRR22731238_1
        94.6%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731238_2
        94.4%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731247_1
        95.7%
        53.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731247_2
        95.0%
        53.0%
        301bp
        301bp
        40%
        0.3M
        fastqc_raw_data_out | SRR22731248_1
        95.6%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731248_2
        95.0%
        53.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731249_1
        95.0%
        50.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731249_2
        94.6%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731250_1
        95.5%
        53.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731250_2
        95.1%
        53.0%
        301bp
        301bp
        40%
        0.3M
        fastqc_raw_data_out | SRR22731257_1
        94.8%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731257_2
        94.0%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731258_1
        95.8%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731258_2
        94.3%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731259_1
        95.5%
        52.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731259_2
        95.2%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731260_1
        94.7%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731260_2
        94.7%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731261_1
        94.8%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731261_2
        94.8%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731262_1
        95.4%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731262_2
        94.4%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731263_1
        95.6%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731263_2
        95.1%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731264_1
        95.4%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731264_2
        94.7%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731265_1
        93.8%
        52.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731265_2
        93.5%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731266_1
        95.7%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731266_2
        95.4%
        54.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731268_1
        94.2%
        52.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731268_2
        94.1%
        52.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731269_1
        94.8%
        54.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731269_2
        94.3%
        54.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731270_1
        94.6%
        54.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731270_2
        94.1%
        54.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731271_1
        94.6%
        55.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731271_2
        94.1%
        55.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731272_1
        94.4%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731272_2
        94.0%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731273_1
        94.7%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731273_2
        94.2%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731274_1
        94.3%
        52.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731274_2
        93.6%
        52.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731275_1
        95.6%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731275_2
        95.0%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731276_1
        96.2%
        52.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731276_2
        95.6%
        52.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731277_1
        96.1%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731277_2
        95.6%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731279_1
        95.1%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731279_2
        94.7%
        54.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731280_1
        95.3%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731280_2
        94.8%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731281_1
        95.6%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731281_2
        95.2%
        53.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731282_1
        94.0%
        53.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731282_2
        93.5%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731283_1
        95.1%
        53.0%
        301bp
        301bp
        40%
        0.3M
        fastqc_raw_data_out | SRR22731283_2
        94.7%
        53.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731284_1
        95.1%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731284_2
        94.9%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731288_1
        95.1%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731288_2
        94.6%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731313_1
        96.4%
        54.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731313_2
        95.6%
        54.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731314_1
        94.9%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731314_2
        94.5%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731315_1
        94.2%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731315_2
        94.0%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731316_1
        94.8%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731316_2
        93.7%
        53.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731318_1
        94.0%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731318_2
        93.3%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731319_1
        96.7%
        53.0%
        301bp
        301bp
        50%
        0.4M
        fastqc_raw_data_out | SRR22731319_2
        95.8%
        54.0%
        301bp
        301bp
        50%
        0.4M
        fastqc_raw_data_out | SRR22731320_1
        94.4%
        55.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731320_2
        93.5%
        55.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731321_1
        94.9%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731321_2
        94.2%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731322_1
        95.1%
        53.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731322_2
        94.6%
        54.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731323_1
        95.2%
        52.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731323_2
        94.6%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731324_1
        94.7%
        52.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731324_2
        94.1%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731325_1
        94.1%
        52.0%
        301bp
        301bp
        50%
        0.2M
        fastqc_raw_data_out | SRR22731325_2
        93.4%
        52.0%
        301bp
        301bp
        40%
        0.2M
        fastqc_raw_data_out | SRR22731326_1
        96.5%
        52.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731326_2
        95.8%
        52.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR22731327_1
        95.6%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731327_2
        94.5%
        53.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731329_1
        95.1%
        51.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731329_2
        94.5%
        51.0%
        301bp
        301bp
        50%
        0.1M
        fastqc_raw_data_out | SRR22731330_1
        94.1%
        53.0%
        301bp
        301bp
        40%
        0.1M
        fastqc_raw_data_out | SRR22731330_2
        93.8%
        53.0%
        301bp
        301bp
        40%
        0.1M
        fastqc_raw_data_out | SRR22731331_1
        92.6%
        53.0%
        301bp
        301bp
        40%
        0.1M
        fastqc_raw_data_out | SRR22731331_2
        92.6%
        53.0%
        301bp
        301bp
        40%
        0.1M
        fastqc_raw_data_out | SRR22731332_1
        94.8%
        53.0%
        301bp
        301bp
        40%
        0.3M
        fastqc_raw_data_out | SRR22731332_2
        94.3%
        53.0%
        301bp
        301bp
        50%
        0.3M
        fastqc_raw_data_out | SRR30948675_1
        96.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948675_2
        96.1%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948676_1
        97.3%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948676_2
        96.9%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948677_1
        97.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948677_2
        97.1%
        54.0%
        150bp
        150bp
        45%
        0.1M
        fastqc_raw_data_out | SRR30948678_1
        96.4%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948678_2
        95.5%
        53.0%
        150bp
        150bp
        45%
        0.1M
        fastqc_raw_data_out | SRR30948679_1
        96.4%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948679_2
        95.9%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948680_1
        96.4%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948680_2
        96.0%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948681_1
        96.5%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948681_2
        96.0%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948682_1
        96.6%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948682_2
        95.8%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948683_1
        96.1%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948683_2
        95.3%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948684_1
        96.8%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948684_2
        96.0%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948685_1
        96.7%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948685_2
        96.0%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948686_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948686_2
        95.3%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948687_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948687_2
        97.0%
        50.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948688_1
        96.4%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948688_2
        95.9%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948689_1
        96.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948689_2
        95.6%
        54.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948690_1
        96.3%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948690_2
        95.8%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948691_1
        97.7%
        55.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948691_2
        97.3%
        54.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948692_1
        97.0%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948692_2
        96.1%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948693_1
        97.0%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948693_2
        96.4%
        54.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948694_1
        97.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948694_2
        96.1%
        52.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948695_1
        97.5%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948695_2
        96.5%
        54.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948696_1
        97.4%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948696_2
        96.2%
        52.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948697_1
        97.3%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948697_2
        95.9%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948698_1
        97.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948698_2
        96.2%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948699_1
        97.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948699_2
        96.2%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948700_1
        97.8%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948700_2
        96.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948701_1
        97.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948701_2
        96.1%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948702_1
        97.5%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948702_2
        96.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948703_1
        96.9%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948703_2
        95.1%
        53.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948704_1
        97.6%
        55.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948704_2
        96.5%
        55.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948705_1
        96.9%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948705_2
        95.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948706_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948706_2
        96.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948707_1
        97.7%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948707_2
        96.5%
        53.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948709_1
        97.3%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948709_2
        95.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948710_1
        97.5%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948710_2
        96.6%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948711_1
        97.2%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948711_2
        94.7%
        54.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948712_1
        96.9%
        52.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948712_2
        95.0%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948713_1
        97.6%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948713_2
        97.0%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948714_1
        97.5%
        51.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948714_2
        97.3%
        51.0%
        150bp
        150bp
        45%
        0.1M
        fastqc_raw_data_out | SRR30948715_1
        97.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948715_2
        97.0%
        53.0%
        150bp
        150bp
        45%
        0.1M
        fastqc_raw_data_out | SRR30948716_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948716_2
        95.2%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948717_1
        97.6%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948717_2
        96.8%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948718_1
        96.5%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948718_2
        95.9%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948719_1
        97.0%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948719_2
        96.2%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948720_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948720_2
        95.5%
        54.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948721_1
        96.8%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948721_2
        95.4%
        54.0%
        150bp
        150bp
        27%
        0.1M
        fastqc_raw_data_out | SRR30948722_1
        97.4%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948722_2
        96.5%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948723_1
        97.6%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948723_2
        96.5%
        53.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948724_1
        97.1%
        52.0%
        150bp
        150bp
        36%
        0.1M
        fastqc_raw_data_out | SRR30948724_2
        96.1%
        52.0%
        150bp
        150bp
        36%
        0.1M

        FastQC

        Version: 0.11.9

        Quality control tool for high throughput sequencing data.URL: http://www.bioinformatics.babraham.ac.uk/projects/fastqc

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Created with MultiQC

        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Created with MultiQC

        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Created with MultiQC

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Created with MultiQC

        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Created with MultiQC

        Sequence Length Distribution

        All samples have sequences of a single length (301bp, 150bp) See the General Statistics Table.

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (e.g. PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Created with MultiQC

        Overrepresented sequences by sample

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as overrepresented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Created with MultiQC

        Top overrepresented sequences

        Top overrepresented sequences across all samples. The table shows 20 most overrepresented sequences across all samples, ranked by the number of samples they occur in.

        Showing 20/20 rows and 3/3 columns.
        Overrepresented sequenceReportsOccurrences% of all reads
        GACTACAGGGGTATCTAATCCTGTTTGCTACCCACACTTTCGAGCCTCAG
        50
        173261
        0.5933%
        GACTACAGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAG
        50
        271618
        0.9301%
        GACTACTGGGGTATCTAATCCTGTTTGCTACCCACACTTTCGAGCCTCAG
        50
        99036
        0.3391%
        GACTACAAGGGTATCTAATCCTGTTTGCTACCCACACTTTCGAGCCTCAG
        50
        93512
        0.3202%
        GACTACAGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        346130
        1.1853%
        GACTACTGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAG
        50
        153658
        0.5262%
        GACTACAAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAG
        50
        144163
        0.4937%
        GACTACAGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        162416
        0.5562%
        GACTACTGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        195051
        0.6679%
        GACTACAAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        184601
        0.6322%
        GACTACAAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        87031
        0.2980%
        GACTACTGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        91787
        0.3143%
        GACTACTAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        117217
        0.4014%
        GACTACCCGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        113527
        0.3888%
        GACTACTCGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        98709
        0.3380%
        GACTACAGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGCGCCTCAG
        50
        79889
        0.2736%
        GACTACCCGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        54241
        0.1857%
        GACTACTAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        56014
        0.1918%
        GACTACCGGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAA
        50
        77916
        0.2668%
        GACTACTCGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTCAG
        50
        46592
        0.1596%

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Created with MultiQC

        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        Created with MultiQC

        Software Versions

        Software Versions lists versions of software tools extracted from file contents.

        SoftwareVersion
        FastQC0.11.9